Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A4 F50 I2 R1	104	44.1	1376607	98.9%	1361464	150.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,043,741	A→G	V157A (GTT→GCT)	etk ←	tyrosine‑protein kinase, role in O‑antigen capsule formation

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,043,741	0	A	G	100.0%	150.8 / NA	43	V157A (GTT→GCT)	etk	tyrosine‑protein kinase, role in O‑antigen capsule formation
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (23/20); total (23/20)

GTACGCTGGCTCAGGACAAACTGTGTTCCTGGTTTGGCCTTAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAACCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCGCCCAGCCGCGACCCACAATCGGAAAATACTTCTGCTCAACTATGTCGCGC  >  NC_000913/1043594‑1043884

gTACGCTGGCTCAGGACAAACTGTGTTCCTGGTTTGGCCTTAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCg                                                                                                                                              >  1:675164/1‑151 (MQ=255)

  aCGCTGGCTCAGGACAAACTGTGTTCCTGGTTTGGCCTTAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGt                                                                                                                                             <  2:439068/150‑1 (MQ=255)

         cTCAGGACAAACTGTGTTCCTGGTTTGGCCTTAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTc                                                                                                                                      >  1:270155/1‑150 (MQ=255)

           cAGGACAAACTGTGTTCCTGGTTTGGCCTTAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAg                                                                                                                                    >  1:406706/1‑150 (MQ=255)

           cAGGACAAACTGTGTTCCTGGTTTGGCCTTAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGt                                                                                                                                   >  2:276331/1‑151 (MQ=255)

                 aaaCTGTGTTCCTGGTTTGGCCTTAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTg                                                                                                                              >  2:197093/1‑150 (MQ=255)

                 aaaCTGTGTTCCTGGTTTGGCCTTAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGa                                                                                                                             <  2:219135/151‑1 (MQ=255)

                   aCTGTGTTCCTGGTTTGGCCTTAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATc                                                                                                                           <  2:444280/151‑1 (MQ=255)

                         ttCCTGGTTTGGCCTTAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGAcc                                                                                                                     >  1:393882/1‑151 (MQ=255)

                              ggTTTGGCCTTAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCAtt                                                                                                                  <  1:641728/149‑1 (MQ=255)

                               gTTTGGCCTTAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTc                                                                                                                 >  2:611219/1‑149 (MQ=255)

                                       ttAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGa                                                                                                        >  1:65880/1‑150 (MQ=255)

                                               cgcgATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATc                                                                                               <  2:376969/151‑1 (MQ=255)

                                                     aGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCt                                                                                          <  1:551224/150‑1 (MQ=255)

                                                              aaCGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGc                                                                                >  1:36193/1‑151 (MQ=255)

                                                              aaCGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGc                                                                                >  2:145695/1‑151 (MQ=255)

                                                               aCGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCt                                                                               <  2:8599/151‑1 (MQ=255)

                                                                 gCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTc                                                                              >  2:350596/1‑150 (MQ=255)

                                                                       tttttCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGt                                                                       >  2:495849/1‑151 (MQ=255)

                                                                       tttttCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGt                                                                       >  1:113559/1‑151 (MQ=255)

                                                                        ttttCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCt                                                                          <  2:634766/147‑1 (MQ=255)

                                                                         tttCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGtt                                                                      <  2:259085/150‑1 (MQ=255)

                                                                          ttCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGttt                                                                     <  2:358860/150‑1 (MQ=255)

                                                                           tCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCTGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGtttt                                                                    <  1:303462/150‑1 (MQ=255)

                                                                           tCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGGGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGttttt                                                                   >  1:488952/1‑151 (MQ=255)

                                                                            ccAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGttt                                                                     <  1:32075/148‑1 (MQ=255)

                                                                                aCGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTg                                                              <  2:554800/151‑1 (MQ=255)

                                                                                      gCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAAt                                                        <  1:35291/151‑1 (MQ=255)

                                                                                        cGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAAtct                                                      <  2:642238/151‑1 (MQ=255)

                                                                                         gACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAAtctc                                                     <  1:61089/151‑1 (MQ=255)

                                                                                                  atTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCGCCCAGCcg                                            >  2:186890/1‑151 (MQ=255)

                                                                                                  atTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCGCCCAGCcg                                            <  1:656780/151‑1 (MQ=255)

                                                                                                   ttGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCGCCCAGCcgc                                           >  2:212432/1‑151 (MQ=255)

                                                                                                    tGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCGCCCAGCcgcg                                          >  1:278315/1‑151 (MQ=255)

                                                                                                     gACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCGCCCAGCCGCGa                                         <  2:396610/151‑1 (MQ=255)

                                                                                                      aCGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCGCCCAGCCGCGAc                                        >  1:308376/1‑151 (MQ=255)

                                                                                                                   cACCTTCCAGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCGCCCAGCCGCGACCCACAATCGGaa                            >  2:15246/1‑150 (MQ=255)

                                                                                                                           aGTGTATAGTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCGCCCAGCCGCGACCCACAATCGGAAAATACTTCt                   >  1:110643/1‑151 (MQ=255)

                                                                                                                                   gTGGCCGTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCGCCCAGCCGCGACCCACAATCGGAAAATACTTCTGCTCAACt           <  1:279307/151‑1 (MQ=255)

                                                                                                                                         gTTTTCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCGCCCAGCCGCGACCCACAATCGGAAAATACTTCTGCTCAACTATGTc      >  1:198116/1‑150 (MQ=255)

                                                                                                                                             tCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCg                                                    <  2:422738/100‑1 (MQ=255)

                                                                                                                                             tCCCCAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCg                                                    >  1:422725/1‑100 (MQ=255)

                                                                                                                                              ccccAGCCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCGCCCAGCCGCGACCCACAATCGGAAAATACTTCTGCTCAACTATGTCgcgc  >  2:358375/1‑149 (MQ=255)

GTACGCTGGCTCAGGACAAACTGTGTTCCTGGTTTGGCCTTAATGTCCGCGATAGTCAGCGCAACGCCATCTTTTTCCAGACGCTGGCCGACCATACCATTGACGGTGAACTCTTCACCTTCCAGTGTATAGTGGCCGTTTTCCCCAACCGTGAGTGTCAGTTGCTGATCCTGACCATTCAGTTGTGGAATATGCATCCAGCTGATCGCCAGCTCACCTGGTTTTTCTTTGGTTAATCTCGCCCAGCCGCGACCCACAATCGGAAAATACTTCTGCTCAACTATGTCGCGC  >  NC_000913/1043594‑1043884

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 18 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A